SUMMARISING RUN PARAMETERS ========================== Input filename: ERR13913491_2.fastq.gz Trimming mode: paired-end Trim Galore version: 0.6.10 Cutadapt version: 4.2 Python version: could not detect Number of cores used for trimming: 2 Quality Phred score cutoff: 20 Quality encoding type selected: ASCII+33 Using Illumina adapter for trimming (count: 14735). Second best hit was smallRNA (count: 0) Adapter sequence: 'AGATCGGAAGAGC' (Illumina TruSeq, Sanger iPCR; auto-detected) Maximum trimming error rate: 0.1 (default) Minimum required adapter overlap (stringency): 1 bp Minimum required sequence length for both reads before a sequence pair gets removed: 20 bp Output file will be GZIP compressed This is cutadapt 4.2 with Python 3.10.8 Command line parameters: -j 2 -e 0.1 -q 20 -O 1 -a AGATCGGAAGAGC ERR13913491_2.fastq.gz Processing single-end reads on 2 cores ... Finished in 2575.469 s (21.949 µs/read; 2.73 M reads/minute). === Summary === Total reads processed: 117,338,871 Reads with adapters: 59,932,756 (51.1%) Reads written (passing filters): 117,338,871 (100.0%) Total basepairs processed: 17,600,830,650 bp Quality-trimmed: 66,787,489 bp (0.4%) Total written (filtered): 17,416,049,616 bp (99.0%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 59932756 times Minimum overlap: 1 No. of allowed errors: 1-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 52.6% C: 17.4% G: 0.3% T: 29.6% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 1 57495174 29334717.8 0 57495174 2 114425 7333679.4 0 114425 3 108497 1833419.9 0 108497 4 80358 458355.0 0 80358 5 71429 114588.7 0 71429 6 61302 28647.2 0 61302 7 64686 7161.8 0 64686 8 69813 1790.4 0 69813 9 50738 447.6 0 50724 14 10 62629 111.9 1 58870 3759 11 60242 28.0 1 55861 4381 12 58449 7.0 1 43516 14933 13 55363 1.7 1 40053 15310 14 60006 1.7 1 43317 16689 15 50651 1.7 1 36636 14015 16 52923 1.7 1 38523 14400 17 65272 1.7 1 47778 17494 18 38214 1.7 1 28021 10193 19 65227 1.7 1 48184 17043 20 43651 1.7 1 31575 12076 21 37786 1.7 1 27657 10129 22 46001 1.7 1 33679 12322 23 44139 1.7 1 32498 11641 24 55125 1.7 1 40450 14675 25 53073 1.7 1 38713 14360 26 30999 1.7 1 22919 8080 27 31991 1.7 1 23617 8374 28 41383 1.7 1 30773 10610 29 35630 1.7 1 26384 9246 30 39745 1.7 1 29692 10053 31 32322 1.7 1 24119 8203 32 36284 1.7 1 27141 9143 33 31299 1.7 1 23377 7922 34 38582 1.7 1 28995 9587 35 37302 1.7 1 27785 9517 36 22830 1.7 1 17123 5707 37 26975 1.7 1 20265 6710 38 25988 1.7 1 19372 6616 39 28205 1.7 1 21416 6789 40 30906 1.7 1 23489 7417 41 21969 1.7 1 16480 5489 42 19948 1.7 1 15090 4858 43 22590 1.7 1 17059 5531 44 22775 1.7 1 17290 5485 45 19991 1.7 1 15214 4777 46 19921 1.7 1 15254 4667 47 19579 1.7 1 14842 4737 48 19205 1.7 1 14551 4654 49 16993 1.7 1 13098 3895 50 16698 1.7 1 12642 4056 51 16415 1.7 1 12612 3803 52 15019 1.7 1 11488 3531 53 14757 1.7 1 11299 3458 54 13980 1.7 1 10789 3191 55 13036 1.7 1 10067 2969 56 13623 1.7 1 10500 3123 57 11185 1.7 1 8584 2601 58 11403 1.7 1 8750 2653 59 13511 1.7 1 10522 2989 60 8586 1.7 1 6482 2104 61 9433 1.7 1 7346 2087 62 10126 1.7 1 7931 2195 63 8746 1.7 1 6667 2079 64 7712 1.7 1 6021 1691 65 13293 1.7 1 10399 2894 66 5882 1.7 1 4476 1406 67 5484 1.7 1 4210 1274 68 5225 1.7 1 4114 1111 69 7042 1.7 1 5534 1508 70 6603 1.7 1 5061 1542 71 5355 1.7 1 4161 1194 72 5425 1.7 1 4280 1145 73 5062 1.7 1 3912 1150 74 4820 1.7 1 3712 1108 75 5859 1.7 1 4543 1316 76 4320 1.7 1 3316 1004 77 3272 1.7 1 2504 768 78 967 1.7 1 726 241 79 2057 1.7 1 1618 439 80 2482 1.7 1 1981 501 81 2247 1.7 1 1791 456 82 2130 1.7 1 1686 444 83 1904 1.7 1 1528 376 84 1810 1.7 1 1415 395 85 1704 1.7 1 1322 382 86 1498 1.7 1 1150 348 87 1276 1.7 1 974 302 88 1211 1.7 1 914 297 89 1117 1.7 1 836 281 90 977 1.7 1 729 248 91 882 1.7 1 650 232 92 795 1.7 1 580 215 93 719 1.7 1 514 205 94 650 1.7 1 461 189 95 580 1.7 1 403 177 96 526 1.7 1 351 175 97 441 1.7 1 308 133 98 419 1.7 1 282 137 99 388 1.7 1 244 144 100 376 1.7 1 239 137 101 292 1.7 1 182 110 102 310 1.7 1 207 103 103 293 1.7 1 174 119 104 271 1.7 1 170 101 105 242 1.7 1 151 91 106 238 1.7 1 149 89 107 219 1.7 1 117 102 108 184 1.7 1 106 78 109 184 1.7 1 112 72 110 193 1.7 1 118 75 111 165 1.7 1 85 80 112 206 1.7 1 128 78 113 148 1.7 1 70 78 114 169 1.7 1 80 89 115 167 1.7 1 91 76 116 153 1.7 1 93 60 117 165 1.7 1 92 73 118 166 1.7 1 102 64 119 140 1.7 1 71 69 120 132 1.7 1 73 59 121 119 1.7 1 71 48 122 103 1.7 1 66 37 123 99 1.7 1 65 34 124 121 1.7 1 73 48 125 84 1.7 1 51 33 126 74 1.7 1 41 33 127 76 1.7 1 44 32 128 66 1.7 1 35 31 129 65 1.7 1 41 24 130 47 1.7 1 38 9 131 29 1.7 1 15 14 132 38 1.7 1 28 10 133 24 1.7 1 16 8 134 23 1.7 1 15 8 135 16 1.7 1 11 5 136 18 1.7 1 11 7 137 16 1.7 1 11 5 138 9 1.7 1 5 4 139 14 1.7 1 11 3 140 11 1.7 1 8 3 141 7 1.7 1 2 5 142 9 1.7 1 4 5 143 1 1.7 1 0 1 144 6 1.7 1 3 3 145 6 1.7 1 2 4 146 6 1.7 1 1 5 147 2 1.7 1 1 1 148 4 1.7 1 3 1 149 4 1.7 1 0 4 150 9 1.7 1 1 8 RUN STATISTICS FOR INPUT FILE: ERR13913491_2.fastq.gz ============================================= 117338871 sequences processed in total Total number of sequences analysed for the sequence pair length validation: 117338871 Number of sequence pairs removed because at least one read was shorter than the length cutoff (20 bp): 22216 (0.02%)